Eric Banks d94d0d15c2 Complete overhaul of previous commits to make it all work with scatter-gather. Now tracks output files correctly and can print to stdout.		2012-09-12 15:15:40 -04:00
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bqsr	Complete overhaul of previous commits to make it all work with scatter-gather. Now tracks output files correctly and can print to stdout.	2012-09-12 15:15:40 -04:00
compression/reducereads	Fixed divide by zero bug when downsampler goes over regions where reads are all filtered out. Added Guillermo's bug report as an integration test	2012-08-09 13:02:11 -04:00
genotyper	Fixed nasty bug with defaulting to diploid no-call genotypes	2012-09-12 07:08:03 -04:00
haplotypecaller	Fix GSA-535: storing likelihoods in allele map was busted when running HaplotypeCaller, only the last likelihood of a haplotype was being stored, as opposed to the max likelihood of all haplotypes mapping to an allele	2012-09-11 11:01:26 -04:00